genome.fa.s8143.2.7.7.80.10.50.1000.4.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008143.1 Hibiscus syriacus cultivar Beakdansim tig00110705_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1142845

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 495 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
906021--906297	102	2.6	104	80	11	305	31	23	15	30	1.95
906022--906299	51	5.3	51	81	10	276	30	23	15	30	1.95
906301--906372	37	2.0	36	91	2	117	20	22	19	37	1.94
907651--907847	7	26.4	7	79	14	121	7	14	0	78	0.96
907769--907850	5	15.0	5	72	20	58	3	15	0	80	0.85
907667--907871	7	24.9	9	80	15	109	9	14	0	76	1.01
915837--915892	25	2.2	25	96	0	103	19	32	8	39	1.83
929391--929590	108	1.8	109	84	7	273	31	17	21	30	1.96
936969--937028	23	2.6	23	97	0	111	23	31	26	18	1.97
943774--943818	23	2.0	23	86	0	63	26	28	24	20	1.99
946843--946975	72	1.9	71	90	1	212	32	19	18	30	1.95
946986--947014	14	2.1	14	100	0	58	58	6	6	27	1.50
948966--949033	34	2.0	33	91	2	109	25	10	5	58	1.53
952512--952545	17	1.9	18	88	5	52	58	5	35	0	1.22
952699--952724	2	13.0	2	100	0	52	50	0	0	50	1.00
954914--954998	39	2.2	39	100	0	170	28	21	18	31	1.97
959051--959212	41	3.7	41	75	16	173	46	4	4	44	1.44
959850--959926	35	2.2	35	82	11	95	28	2	61	7	1.37
961467--961607	31	4.5	31	80	7	144	37	0	6	55	1.31
961467--961607	63	2.3	63	80	10	166	37	0	6	55	1.31
961788--961822	11	3.1	11	88	8	52	34	2	0	62	1.10
961790--961822	12	2.8	12	90	4	50	33	3	0	63	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
962601--962716	23	5.0	23	89	0	160	37	15	18	27	1.92
964774--964856	29	3.0	27	86	10	114	27	0	16	55	1.42
964777--964835	29	2.0	29	100	0	118	23	0	16	59	1.37
965977--966020	23	1.9	23	81	9	54	65	2	9	22	1.32
966835--966879	3	15.0	3	100	0	90	33	0	0	66	0.92
967506--967545	16	2.7	15	85	11	55	42	37	0	20	1.52
967660--967707	19	2.5	20	75	3	53	41	2	0	56	1.11
967674--967743	19	3.7	18	69	16	52	47	1	4	47	1.31
968531--968555	7	3.6	7	100	0	50	64	0	0	36	0.94
980448--980523	36	2.1	36	97	0	143	31	10	14	43	1.79
980947--980976	15	2.0	15	100	0	60	13	26	46	13	1.80
985453--985528	36	2.1	36	97	0	143	31	10	14	43	1.79
985938--986005	22	2.9	23	81	14	70	51	0	0	48	1.00
985955--986018	22	2.8	24	81	11	73	48	0	0	51	1.00
985967--986115	31	5.1	31	70	24	94	46	0	1	51	1.14
985982--986084	54	1.9	52	84	11	138	48	0	0	49	1.14
986290--986359	20	3.5	20	96	0	131	35	14	10	40	1.79
986290--986368	40	2.0	40	89	0	122	35	15	8	40	1.78
986342--986423	15	5.5	15	88	2	121	35	19	7	37	1.80
986342--986423	30	2.8	30	94	1	139	35	19	7	37	1.80
986342--986428	45	2.0	44	93	2	147	33	19	6	40	1.78
997134--997158	4	6.2	4	100	0	50	76	0	24	0	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1005015--1005054	20	2.0	20	90	0	62	37	32	12	17	1.87
1007475--1007514	20	2.0	21	85	5	55	32	2	5	60	1.32
1011198--1011223	13	2.0	13	100	0	52	53	0	0	46	1.00
1011193--1011225	15	2.2	15	94	0	57	54	0	3	42	1.15
1017574--1017630	28	2.1	27	93	3	96	29	8	5	56	1.52
1018992--1019132	64	2.2	64	82	8	164	31	17	24	26	1.97
1019152--1019266	19	6.0	19	98	1	221	31	20	21	26	1.98
1020255--1020395	64	2.2	63	86	5	185	36	18	19	26	1.94
1020733--1020768	18	2.0	18	88	0	54	30	8	16	44	1.77
1021745--1021807	18	3.3	18	79	16	81	20	22	34	22	1.96
1023021--1023114	18	5.0	18	82	7	107	20	23	30	25	1.98
1023022--1023116	38	2.5	38	87	0	154	22	22	30	25	1.99
1024660--1024686	11	2.5	11	100	0	54	85	0	0	14	0.61
1025324--1025439	21	5.6	21	69	10	60	32	27	18	21	1.96
1025427--1025579	20	7.6	20	87	3	200	33	26	19	19	1.96
1025954--1026024	33	2.2	33	94	0	124	11	23	16	47	1.79
1026104--1026175	19	3.5	20	80	10	83	45	19	20	13	1.84
1026198--1026325	19	7.1	19	71	19	87	10	25	18	45	1.82
1026220--1026276	14	3.7	14	75	20	60	8	24	22	43	1.81
1026203--1026325	33	3.5	33	88	10	165	10	24	18	46	1.81
1026261--1026325	21	3.1	21	82	4	96	10	26	15	47	1.78
1028010--1028325	93	3.4	93	99	0	614	22	13	18	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1028441--1028497	14	3.7	14	72	20	51	43	24	22	8	1.81
1028455--1028516	19	3.6	18	72	20	60	45	27	19	8	1.78
1028423--1028530	33	3.2	33	90	1	153	45	26	18	9	1.80
1028472--1028544	14	4.9	14	81	15	92	47	28	16	6	1.72
1028556--1028728	19	9.6	19	76	12	150	10	19	23	46	1.81
1028578--1028634	14	3.7	14	75	20	51	10	22	22	43	1.84
1028556--1028728	33	4.8	38	80	8	159	10	19	23	46	1.81
1030652--1030687	14	2.6	14	95	0	63	33	0	22	44	1.53
1030794--1030892	20	5.4	19	84	12	136	45	17	23	14	1.84
1030794--1030910	54	2.2	53	96	3	218	43	17	24	13	1.86
1030907--1031176	105	2.6	109	91	7	425	13	22	17	46	1.83
1030929--1031162	72	3.3	72	81	10	288	14	21	17	46	1.83
1030907--1031176	53	5.1	52	89	8	406	13	22	17	46	1.83
1033461--1033485	12	2.1	12	100	0	50	0	28	0	72	0.86
1034399--1034490	20	4.6	20	88	0	130	20	16	21	41	1.90
1034416--1034589	20	8.7	20	85	4	217	20	18	25	34	1.96
1034418--1034667	60	4.2	60	79	6	229	18	18	26	38	1.93
1034576--1034667	20	4.6	20	91	2	107	11	17	26	44	1.83
1034418--1034628	40	5.3	40	86	3	232	18	18	27	36	1.94
1034990--1035051	23	2.8	21	82	9	61	51	1	4	41	1.33
1035740--1035789	2	25.0	2	100	0	100	50	0	0	50	1.00
1047957--1047982	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1052160--1052235	29	2.6	28	81	10	82	28	14	30	26	1.95
1054502--1054541	21	2.0	20	90	5	62	37	5	10	47	1.59
1055141--1055209	2	34.5	2	100	0	138	49	0	0	50	1.00
1056271--1056388	60	2.0	60	88	3	175	35	16	16	31	1.91
1056271--1056407	60	2.3	60	84	5	170	35	15	16	33	1.90
1058760--1058841	5	15.2	5	78	14	83	8	20	52	18	1.71
1058753--1058841	22	4.0	22	98	0	169	10	21	50	17	1.75
1058842--1058934	9	9.7	9	77	11	78	30	27	25	16	1.96
1058861--1058935	29	2.5	31	89	8	120	29	26	26	17	1.97
1058842--1058934	19	4.8	19	76	17	75	30	27	25	16	1.96
1067366--1067447	5	15.2	5	78	14	83	8	20	52	18	1.71
1067359--1067447	22	4.0	22	98	0	169	10	21	50	17	1.75
1067448--1067540	9	9.7	9	77	11	78	30	27	25	16	1.96
1067467--1067541	29	2.5	31	89	8	120	29	26	26	17	1.97
1067448--1067540	19	4.8	19	76	17	75	30	27	25	16	1.96
1083701--1083756	23	2.4	24	79	8	62	42	1	1	53	1.21
1087044--1087087	23	2.0	22	81	4	52	65	13	6	13	1.44
1093142--1093202	21	3.2	21	65	29	64	31	4	21	42	1.74
1093140--1093242	35	2.9	36	91	4	163	32	4	19	43	1.72
1097765--1097825	21	3.2	21	65	29	64	31	4	21	42	1.74
1097757--1097875	35	3.3	37	88	8	174	31	5	18	44	1.71
1099329--1099772	41	10.7	41	80	4	273	27	19	18	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099364--1099682	84	3.8	82	79	5	237	28	18	17	35	1.94
1099329--1099766	166	2.6	166	84	3	535	27	18	18	34	1.95
1099344--1099685	125	2.7	125	88	0	495	29	19	17	33	1.95
1099344--1099770	125	3.4	124	84	2	491	28	19	18	34	1.95
1099855--1099898	21	2.2	20	84	12	54	34	38	0	27	1.57
1103532--1103813	43	6.6	43	79	5	286	24	21	20	32	1.98
1103532--1103732	85	2.3	86	85	5	284	24	21	21	32	1.98
1103536--1103813	128	2.2	129	81	5	312	25	21	19	33	1.97
1104307--1104360	21	2.6	21	93	0	90	29	27	22	20	1.98
1104621--1104675	21	2.7	19	78	15	65	21	21	23	32	1.98

Tables:   1   2   3   4   5